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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACTATTTCTGCCTCAACATCCAAAGATGGTGGCAGTGGCCAATCTGACACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaaaaatcatagagcttgtgtcacactagaactagtagttcctgtattaaaggtttatttatctttctttcccctgctttcttgatacacatactacataatttgactttcaattggtactgtttcactaatgtcttgtgccactgtccatttcag

Basic information

species Vitis vinifera
transcript Vv07s0005g00590.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g00590.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G158662_T01 (Zea mays), 5'ss of exon 3
---GACTATTTCTGCCTCAACATCCAAAGATGGTGGCAGTGGCCAATCTGACACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaaaaatcatagagcttgtgtcacactagaactagtagttcctgtattaaaggtttatttatctt-tctttcccctgctttcttgatacacatactacataatttgactttcaattggtactgtttcactaatgtcttgtgccactgtccatttcag
    | |  || ||  |||||| ||||  ||  ||    ||||  ||||||  | ||||  || ||||| |||||||| ||| ||||||| ||||||||||||||  |      | ||     | | |||  ||  |  |||||   ||     |||  |     |   || |  | |   |  ||| | || || || |     | | |||                                                      
AGCAATTCCTTTTGGGTCAACACCCAAGAATAATGA---TGGCACATCTGATGCTGGAACAAATTGGTTAATGTTTGAGTTGCTGTGGAGAGATTTCTTCAGgtatgt------accacttgccctctgtttcag-atgactagcc-ttgtgccattgtattgcaacggatatgatataggcaatgcatgctggaaactctag--agacaat------------------------------------------------------

upper sequence: Vv07s0005g00590.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: EFJ32286 (Selaginella moellendorffii), 5'ss of exon 3
GACTATTTCTGCCTCAACATCCAAAGATGGTGGCAGTGGCCAATC-TGACACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaaaaatcatagagcttgtgtcacactagaactagtagttcctgtattaaaggtttatttatctttctttcccctgctttcttgatacacatactacataatttgactttcaattggtactgtttcactaatgtcttgtgccactgtccatttcag
                                       | |    |||| |||||||| | ||| |  | ||||||||| | |||||||||||||||||||||         |    |||        |  |||||    ||  ||  | |  |   | || |                                                                                                   
---------------------------------------CTAGCGGTGACTCCGGAATGCAGTGGCTTGTCTTTGAATTGCTCTGGAGGGATTTCTTCAGgtaagcctgttcctttctgagtcgcgagtagtctaga--ctgtcattaatctgcttgtgtttcag--------------------------------------------------------------------------------------------------

upper sequence: Vv07s0005g00590.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: EFJ20970 (Selaginella moellendorffii), 5'ss of exon 3
GACTATTTCTGCCTCAACATCCAAAGATGGTGGCAGTGGCCAATC-TGACACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaaaaatcatagagcttgtgtcacactagaactagtagttcctgtattaaaggtttatttatctttctttcccctgctttcttgatacacatactacataatttgactttcaattggtactgtttcactaatgtcttgtgccactgtccatttcag
                                       | |    |||| |||||||| | ||| |  | ||||||||| | |||||||||||||||||||||         |  | |||        |  |||||    ||  ||  | |  |   | || |                                                                                                   
---------------------------------------CTAGCGGTGACTCCGGAATGCAGTGGCTTGTCTTTGAATTGCTCTGGAGGGATTTCTTCAGgtaagcctgttcctttttgagtcgcgagtagtctaga--ctgtcattaatctgcttgtgtttcag--------------------------------------------------------------------------------------------------

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|110701925|gb|EE080049.1|EE080049
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAAGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|110386489|gb|EC951087.1|EC951087
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|110389196|gb|EC954015.1|EC954015
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|83274888|gb|DV938984.1|DV938984
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|71870267|gb|DT019322.1|DT019322
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|71870570|gb|DT019625.1|DT019625
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|34544188|gb|CF512420.1|CF512420
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTTTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|352765248|gb|FQ465945.1|FQ465945
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|33405508|gb|CF211135.1|CF211135
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|110701159|gb|EE078446.1|EE078446
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|110690898|gb|EE068384.1|EE068384
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|33405448|gb|CF211075.1|CF211075
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|30125272|gb|CB910611.1|CB910611
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|110691328|gb|EE069302.1|EE069302
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|110422968|gb|EC989303.1|EC989303
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|110716807|gb|EE092112.1|EE092112
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAAGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|110419785|gb|EC986035.1|EC986035
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|33408762|gb|CF214389.1|CF214389
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|110693315|gb|EE069440.1|EE069440
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|77583036|gb|DV220555.1|DV220555
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|33408844|gb|CF214471.1|CF214471
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|45770261|gb|CN006113.1|CN006113
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|34544101|gb|CF512333.1|CF512333
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|110375554|gb|EC940553.1|EC940553
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|110415597|gb|EC981517.1|EC981517
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|110420456|gb|EC986729.1|EC986729
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|77588011|gb|DV223214.1|DV223214
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|30134670|gb|CB920008.1|CB920008
EST:     ACGGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCNAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|110686316|gb|EE063812.1|EE063812
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|110385225|gb|EC949729.1|EC949729
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|110379532|gb|EC944732.1|EC944732
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|110387051|gb|EC951691.1|EC951691
EST:     TGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: TGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|110425064|gb|EC991441.1|EC991441
EST:     TTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: TTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
EST: gi|110371305|gb|EC935215.1|EC935215
EST:     ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAG                         ATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC
genomic: ACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaa ... tccatttcagATTCATCACCAAGAAGTATAGTTCTGCCACGAAGCAGGTTGACGCTGCTCC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACTATTTCTGCCTCAACATCCAAAGATGGTGGCAGTGGCCAATCTGACACCGGAATGAACTGGTTGATGTTTGAATTGATGTGGAGGGATTTCTTCAGgtaacttgaaaaatcatagagcttgtgtcacactagaactagtagttcctgtattaaaggtttatttatctttctttcccctgctttcttgatacacatactacataatttgactttcaattggtactgtttcactaatgtcttgtgccactgtccatttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG